Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 55 of 328
Found at i:15510757 original size:16 final size:16
Alignment explanation
Indices: 15510716--15510750 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15510706 TAGGTTTTCA
15510716 TTTTTCTTTTCTCTTC
1 TTTTTCTTTTCTCTTC
*
15510732 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTCTTC
15510748 TTT
1 TTT
15510751 CTTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTC
Found at i:15510757 original size:21 final size:21
Alignment explanation
Indices: 15510717--15510756 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15510707 AGGTTTTCAT
15510717 TTTTCTTTTCTCTTCTTTTTC
1 TTTTCTTTTCTCTTCTTTTTC
15510738 TTTTCTTTTCT-TTCTTTTT
1 TTTTCTTTTCTCTTCTTTTT
15510757 TTTATTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTTTTCTCTTCTTTTTC
Found at i:15513927 original size:30 final size:30
Alignment explanation
Indices: 15513845--15513928 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 30
15513835 TAGGTCCTTA
*
15513845 TACTATTTACAAATTT-AAAATTTAGCCTATG
1 TACT-TTT-CAAATTTAAAAATTTAGCCTATC
*
15513876 TACTTTT---ATTTATAGAAATTTAGCCTCTC
1 TACTTTTCAAATTTA-A-AAATTTAGCCTATC
15513905 TACTTTTCAAATTTAAAAATTTAG
1 TACTTTTCAAATTTAAAAATTTAG
15513929 GTACAATTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
26 4 0.09
28 1 0.02
29 19 0.42
30 11 0.24
31 5 0.11
32 5 0.11
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (30 bp):
TACTTTTCAAATTTAAAAATTTAGCCTATC
Found at i:15518787 original size:7 final size:7
Alignment explanation
Indices: 15518777--15518842 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
15518767 TTAAAGTTAA
15518777 TATATAT
1 TATATAT
15518784 TATAATAT
1 TAT-ATAT
15518792 TATAATAT
1 TAT-ATAT
*
15518800 TATATCT
1 TATATAT
15518807 TA-ATTAT
1 TATA-TAT
15518814 TAAGTATAT
1 T-A-TATAT
15518823 ATATTATAT
1 -TA-TATAT
15518832 TATATAT
1 TATATAT
15518839 TATA
1 TATA
15518843 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:15518793 original size:8 final size:8
Alignment explanation
Indices: 15518780--15518845 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
15518770 AAGTTAATAT
15518780 ATATTATA
1 ATATTATA
15518788 ATATTATA
1 ATATTATA
15518796 ATATTAT-
1 ATATTATA
*
15518803 ATCTTA-A
1 ATATTATA
*
15518810 TTATTA-A
1 ATATTATA
*
15518817 GTATATATATT
1 --ATAT-TATA
15518828 ATATTAT-
1 ATATTATA
15518835 ATATTATA
1 ATATTATA
15518843 ATA
1 ATA
15518846 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:15518813 original size:27 final size:26
Alignment explanation
Indices: 15518777--15518845 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
15518767 TTAAAGTTAA
15518777 TATATATTATAATATTATAATATTATAT
1 TATATATTATAATA-TAT-ATATTATAT
15518805 CT-TA-ATTATTAAGTATATATATTATAT
1 -TATATATTA-TAA-TATATATATTATAT
15518832 TATATATTATAATA
1 TATATATTATAATA
15518846 AGTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 12 0.33
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
TATATATTATAATATATATATTATAT
Found at i:15518855 original size:30 final size:32
Alignment explanation
Indices: 15518787--15518855 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
15518777 TATATATTAT
* *
15518787 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
15518820 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
15518850 AATATA
1 AATATA
15518856 ATAAATGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:15518914 original size:10 final size:10
Alignment explanation
Indices: 15518863--15518924 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
15518853 ATAATAAATG
*
15518863 AAAGAAACAA
1 AAAGAAAGAA
15518873 AAAGAAAGACA
1 AAAGAAAGA-A
15518884 AAAGGTTAAACGAA
1 AAA-G--AAA-GAA
*
15518898 ATAGAAAGAA
1 AAAGAAAGAA
*
15518908 AAGGAAAGAA
1 AAAGAAAGAA
15518918 AAAGAAA
1 AAAGAAA
15518925 AGGAGAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
10 25 0.60
11 7 0.17
12 1 0.02
13 1 0.02
14 6 0.14
15 2 0.05
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:15522240 original size:26 final size:24
Alignment explanation
Indices: 15522211--15522260 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
15522201 TGTGGATTCT
*
15522211 AATTGAGTAATAATATTGAGCACCAA
1 AATTGAATAATAATA-TGA-CACCAA
*
15522237 AATTTAATAATAATATGACACCAA
1 AATTGAATAATAATATGACACCAA
15522261 GAGTTGATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (24 bp):
AATTGAATAATAATATGACACCAA
Found at i:15523990 original size:43 final size:43
Alignment explanation
Indices: 15523885--15524042 Score: 255
Period size: 43 Copynumber: 3.7 Consensus size: 43
15523875 TGTAATTACA
* * *
15523885 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATG-GTTAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
15523927 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
*
15523970 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
* *
15524013 TGTAAGACCTTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
15524043 ATATGTGATA
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 36 0.33
43 72 0.67
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
Found at i:15524061 original size:86 final size:85
Alignment explanation
Indices: 15523882--15524063 Score: 249
Period size: 86 Copynumber: 2.1 Consensus size: 85
15523872 AGATGTAATT
* *
15523882 ACATGTAAGACCATGTCTGGGACATTGGCATTGTATTATGGTTAGTGTAAGACCATGTCTGGGAC
1 ACATGTAAGACCATGTCTAGGACATTGGCATCGTATTATGGTTAGTGTAAGACCATGTCTGGGAC
* *
15523947 ATTGGCATCGTATTATGATT
66 AGTGGCATCGTATTATGATA
* * * * *
15523967 TCGTGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTTCGTGTAAGACCTTGTCTGGGA
1 ACATGTAAGACCATGTCTAGGACATTGGCATCGTATTATG-GTTAGTGTAAGACCATGTCTGGGA
*
15524032 CAGTGGCATCG-ATATGTGATA
65 CAGTGGCATCGTAT-TATGATA
15524053 ACATGTAAGAC
1 ACATGTAAGAC
15524064 AATATTTGGG
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 38 0.46
86 45 0.54
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (85 bp):
ACATGTAAGACCATGTCTAGGACATTGGCATCGTATTATGGTTAGTGTAAGACCATGTCTGGGAC
AGTGGCATCGTATTATGATA
Found at i:15524359 original size:16 final size:17
Alignment explanation
Indices: 15524328--15524360 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15524318 TATATGCAAA
15524328 TATTTATATAATGACTT
1 TATTTATATAATGACTT
*
15524345 TATTTGTAT-ATGACTT
1 TATTTATATAATGACTT
15524361 ACTAAGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTTATATAATGACTT
Found at i:15525104 original size:44 final size:45
Alignment explanation
Indices: 15525017--15525104 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
15525007 GCTGTGTGCA
**
15525017 ACACACAGTCATGCTGCACAGTCAGTGTGTCACCTGGGGTACCAG
1 ACACACAGTCATGCTGCACAGTCAGTGTGTCACCTGAAGTACCAG
* *
15525062 ACACACGGTCATGCTGCACGGTC-GTGTGTC-CTCTGAAGTACCA
1 ACACACAGTCATGCTGCACAGTCAGTGTGTCAC-CTGAAGTACCA
15525105 TTTCGAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 16 0.42
45 21 0.55
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.22
Consensus pattern (45 bp):
ACACACAGTCATGCTGCACAGTCAGTGTGTCACCTGAAGTACCAG
Found at i:15525365 original size:19 final size:20
Alignment explanation
Indices: 15525328--15525365 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15525318 GCTAATAAAG
15525328 ATACATTTAATGAAAAAAAA
1 ATACATTTAATGAAAAAAAA
15525348 ATACATTTAATGAAAAAA
1 ATACATTTAATGAAAAAA
15525366 TATATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
ATACATTTAATGAAAAAAAA
Found at i:15525377 original size:18 final size:17
Alignment explanation
Indices: 15525343--15525385 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
15525333 TTTAATGAAA
*
15525343 AAAAAATACATTTAATG
1 AAAAAATACATTAAATG
*
15525360 AAAAAATATATATAAATG
1 AAAAAATACAT-TAAATG
15525378 AAATAAAT
1 AAA-AAAT
15525386 TCAATTAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 8 0.36
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAAAATACATTAAATG
Found at i:15529049 original size:12 final size:12
Alignment explanation
Indices: 15529032--15529075 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
15529022 AGAGCAAAGT
15529032 TTTATTTTATTA
1 TTTATTTTATTA
15529044 TTTATTTTGA-TA
1 TTTATTTT-ATTA
15529056 -TTATTTTATTA
1 TTTATTTTATTA
15529067 TTTAATTTT
1 TTT-ATTTT
15529076 TTGTGCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 9 0.32
12 12 0.43
13 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:15529778 original size:12 final size:12
Alignment explanation
Indices: 15529761--15529785 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15529751 AACTAAATTT
15529761 AGAAAATAACAA
1 AGAAAATAACAA
15529773 AGAAAATAACAA
1 AGAAAATAACAA
15529785 A
1 A
15529786 AATTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AGAAAATAACAA
Found at i:15534119 original size:29 final size:29
Alignment explanation
Indices: 15534077--15534135 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
15534067 GAAAGGGTAG
*
15534077 AAGCTTGTCTTTCATCCCATTCGATTTTA
1 AAGCCTGTCTTTCATCCCATTCGATTTTA
15534106 AAGCCTGTCTTTCATCCCATTCGATTTTA
1 AAGCCTGTCTTTCATCCCATTCGATTTTA
15534135 A
1 A
15534136 CTTGTAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.42
Consensus pattern (29 bp):
AAGCCTGTCTTTCATCCCATTCGATTTTA
Found at i:15536324 original size:32 final size:32
Alignment explanation
Indices: 15536288--15536351 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15536278 AAAGATAATC
15536288 GCAATGTTTAATTAATTTAAGACTGACTGCTT
1 GCAATGTTTAATTAATTTAAGACTGACTGCTT
*
15536320 GCAATGTTTAATTAATTTAAGACTGAGTGCTT
1 GCAATGTTTAATTAATTTAAGACTGACTGCTT
15536352 AATTTAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (32 bp):
GCAATGTTTAATTAATTTAAGACTGACTGCTT
Found at i:15538225 original size:13 final size:13
Alignment explanation
Indices: 15538163--15538225 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
15538153 TTTAAACTAA
*
15538163 ATTTTTCAAAATC
1 ATTTTTCAAAAAC
*
15538176 ATTTTTCAAAAAT
1 ATTTTTCAAAAAC
* *
15538189 ATTTTT-TACAAC
1 ATTTTTCAAAAAC
*
15538201 ATTTTTTAAAAAC
1 ATTTTTCAAAAAC
*
15538214 ACTTTTCAAAAA
1 ATTTTTCAAAAA
15538226 TATTATTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 9 0.22
13 31 0.77
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTTCAAAAAC
Found at i:15539847 original size:13 final size:14
Alignment explanation
Indices: 15539821--15539852 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
15539811 TCAACTCAAT
15539821 TAATAAATTATATA
1 TAATAAATTATATA
15539835 TAATAAA-TATATA
1 TAATAAATTATATA
15539848 TAATA
1 TAATA
15539853 TATTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAAATTATATA
Found at i:15541606 original size:28 final size:28
Alignment explanation
Indices: 15541553--15541606 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
15541543 TTGTTTAAAA
* *
15541553 ATATCATAGTTTCATTTAACTATTTCGT
1 ATATCATAGTTTCAATTAAATATTTCGT
*
15541581 ATATCATTTGTTTCAATTAAAT-TTTC
1 ATATCA-TAGTTTCAATTAAATATTTC
15541607 ACAAATGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 10 0.45
29 12 0.55
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.52
Consensus pattern (28 bp):
ATATCATAGTTTCAATTAAATATTTCGT
Found at i:15550425 original size:4 final size:4
Alignment explanation
Indices: 15550416--15550448 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
15550406 TTACCACCAA
15550416 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
15550449 TTTCTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:15551456 original size:6 final size:6
Alignment explanation
Indices: 15551447--15551482 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
15551437 AATAAAATTT
*
15551447 AAATAA AAATAA AAATAA AAGTAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
15551483 TAGTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:15551471 original size:18 final size:18
Alignment explanation
Indices: 15551437--15551494 Score: 75
Period size: 17 Copynumber: 3.3 Consensus size: 18
15551427 AAAAAAAGAC
* *
15551437 AATAAAATTTAAA-TAAA
1 AATAAAAATAAAAGTAAA
15551454 AATAAAAATAAAAGTAAA
1 AATAAAAATAAAAGTAAA
*
15551472 AATAAAAATAATAGT-AA
1 AATAAAAATAAAAGTAAA
15551489 AATAAA
1 AATAAA
15551495 GGGAGTCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 19 0.51
18 18 0.49
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AATAAAAATAAAAGTAAA
Found at i:15557818 original size:30 final size:30
Alignment explanation
Indices: 15557782--15557838 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
15557772 ACGGCCATGA
15557782 CACACGGGAGTGTGGTCTACCCGTGTGCTT
1 CACACGGGAGTGTGGTCTACCCGTGTGCTT
* *
15557812 CACACGGGCGTGTGGTTTACCCGTGTG
1 CACACGGGAGTGTGGTCTACCCGTGTG
15557839 AAACACTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.26, G:0.35, T:0.26
Consensus pattern (30 bp):
CACACGGGAGTGTGGTCTACCCGTGTGCTT
Found at i:15559124 original size:23 final size:23
Alignment explanation
Indices: 15559094--15559141 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15559084 TATACATAAC
15559094 TTCAAAAGTACCAAAATAGACGT
1 TTCAAAAGTACCAAAATAGACGT
15559117 TTCAAAAGTACCAAAATAGACGT
1 TTCAAAAGTACCAAAATAGACGT
15559140 TT
1 TT
15559142 GATAGTGCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (23 bp):
TTCAAAAGTACCAAAATAGACGT
Found at i:15559367 original size:49 final size:49
Alignment explanation
Indices: 15559298--15559395 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
15559288 AATTTCACAT
15559298 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
1 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
*
15559347 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTTATCTCA
1 CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
15559396 TTAAACTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (49 bp):
CAACTACAAACCTTTCTCATGTTTTAAAACATGATTAAATGTCATCTCA
Found at i:15563246 original size:13 final size:12
Alignment explanation
Indices: 15563223--15563285 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
15563213 AATAATTTTA
15563223 TATTAAAATTAT
1 TATTAAAATTAT
15563235 TATT-AAA-TAT
1 TATTAAAATTAT
15563245 TATTAATAATTA-
1 TATTAA-AATTAT
*
15563257 TATTAAGAA-TGT
1 TATTAA-AATTAT
15563269 TATT-AAATTAT
1 TATTAAAATTAT
15563280 ATATTA
1 -TATTA
15563286 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:15563250 original size:22 final size:23
Alignment explanation
Indices: 15563223--15563285 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
15563213 AATAATTTTA
15563223 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
15563245 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
15563269 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
15563286 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:15563364 original size:61 final size:58
Alignment explanation
Indices: 15563248--15563381 Score: 146
Period size: 61 Copynumber: 2.3 Consensus size: 58
15563238 TAAATATTAT
* * * *
15563248 TAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTAA
1 TAATAATTATATTAAGAATATGATTAAATTATATATTATTTTAGTAAAATATATTTAA
* *
15563306 TAATAATTATGTTAA-AATATGATTAAATTATTTATTTTTATTTTTAGTAAAATATATTTAA
1 TAATAATTATATTAAGAATATGATTAAATTA--TA-TATTA-TTTTAGTAAAATATATTTAA
*
15563367 CAATAATCT-TATTAA
1 TAATAAT-TATATTAA
15563382 AATTTAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
57 13 0.21
58 14 0.22
59 2 0.03
60 4 0.06
61 29 0.46
62 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (58 bp):
TAATAATTATATTAAGAATATGATTAAATTATATATTATTTTAGTAAAATATATTTAA
Found at i:15563564 original size:16 final size:16
Alignment explanation
Indices: 15563543--15563586 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
15563533 TGAATTATTG
15563543 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
15563559 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
15563575 ATTATAGCTCTA
1 ATTACAGCTCTA
15563587 GCCCTATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:15566978 original size:21 final size:21
Alignment explanation
Indices: 15566952--15566997 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
15566942 ATACAATAGA
15566952 AGAGATTCGCGAGGCACTAGC
1 AGAGATTCGCGAGGCACTAGC
15566973 AGAGATTCGCGAGGCACTAGC
1 AGAGATTCGCGAGGCACTAGC
15566994 AGAG
1 AGAG
15566998 TTGGGCCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.35, T:0.13
Consensus pattern (21 bp):
AGAGATTCGCGAGGCACTAGC
Found at i:15579666 original size:31 final size:30
Alignment explanation
Indices: 15579628--15579703 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
15579618 GAATCTCAAA
* *
15579628 TTATATATAAACTTTAG-TCTAATGTGTAATT
1 TTATATATAAAATTTAGAT-T-ATCTGTAATT
* *
15579659 TTATATATAAAGTTT-GATTTTCTGTAATT
1 TTATATATAAAATTTAGATTATCTGTAATT
15579688 TTATATATAAAATTTA
1 TTATATATAAAATTTA
15579704 ATTTGATCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 22 0.56
30 2 0.05
31 15 0.38
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (30 bp):
TTATATATAAAATTTAGATTATCTGTAATT
Found at i:15579684 original size:29 final size:29
Alignment explanation
Indices: 15579652--15579707 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
15579642 TAGTCTAATG
* *
15579652 TGTAATTTTATATATAAAGTTTGATTTTC
1 TGTAATTTTATATATAAAATTTAATTTTC
15579681 TGTAATTTTATATATAAAATTTAATTT
1 TGTAATTTTATATATAAAATTTAATTT
15579708 GATCTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (29 bp):
TGTAATTTTATATATAAAATTTAATTTTC
Found at i:15579715 original size:29 final size:29
Alignment explanation
Indices: 15579654--15579718 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
15579644 GTCTAATGTG
* * ** *
15579654 TAATTTTATATATAAAGTTTGATTTTCTG
1 TAATTTTATATATAAAATTTAATTTGATC
15579683 TAATTTTATATATAAAATTTAATTTGATC
1 TAATTTTATATATAAAATTTAATTTGATC
15579712 TAATTTT
1 TAATTTT
15579719 CATAAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (29 bp):
TAATTTTATATATAAAATTTAATTTGATC
Found at i:15579783 original size:23 final size:23
Alignment explanation
Indices: 15579739--15579790 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15579729 TAACACAATT
*
15579739 ATTA-ATATAACATAATTTTATA
1 ATTATATATAACATAATTGTATA
*
15579761 TTTATATATAACAT-ATATGTATA
1 ATTATATATAACATAAT-TGTATA
15579784 ATTATAT
1 ATTATAT
15579791 TTATTCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTATATATAACATAATTGTATA
Found at i:15579886 original size:31 final size:32
Alignment explanation
Indices: 15579851--15579913 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
15579841 ATTGAATCAA
15579851 AATTAAAATTTT-ATATATATAT-TTAAATTAC
1 AATT-AAATTTTCATATATATATATTAAATTAC
*
15579882 AATTAAATTTTCATATTTATATATTAAATTAC
1 AATTAAATTTTCATATATATATATTAAATTAC
15579914 CTATCGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 13 0.45
32 9 0.31
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
AATTAAATTTTCATATATATATATTAAATTAC
Found at i:15586916 original size:26 final size:26
Alignment explanation
Indices: 15586887--15586936 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15586877 TGGTGTTTTC
15586887 CAGTTAAGTTATGAACTAGTGTTCGT
1 CAGTTAAGTTATGAACTAGTGTTCGT
* * *
15586913 CAGTTATGTTGTGAACTGGTGTTC
1 CAGTTAAGTTATGAACTAGTGTTC
15586937 ACCAGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.12, G:0.26, T:0.40
Consensus pattern (26 bp):
CAGTTAAGTTATGAACTAGTGTTCGT
Found at i:15586942 original size:26 final size:26
Alignment explanation
Indices: 15586877--15586942 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
15586867 TTTGACGAAT
**
15586877 TGGTGTTTTCCAGTTAAGTTATGAAC
1 TGGTGTTCACCAGTTAAGTTATGAAC
* ** * *
15586903 TAGTGTTCGTCAGTTATGTTGTGAAC
1 TGGTGTTCACCAGTTAAGTTATGAAC
15586929 TGGTGTTCACCAGT
1 TGGTGTTCACCAGT
15586943 CAAAGTTAGA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.41
Consensus pattern (26 bp):
TGGTGTTCACCAGTTAAGTTATGAAC
Found at i:15595186 original size:10 final size:10
Alignment explanation
Indices: 15595173--15595199 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15595163 CTGATTTTGG
15595173 TTCATTTTAT
1 TTCATTTTAT
15595183 TTCATTTTAT
1 TTCATTTTAT
15595193 TTCATTT
1 TTCATTT
15595200 AAATGCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCATTTTAT
Found at i:15603593 original size:51 final size:51
Alignment explanation
Indices: 15603531--15603634 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
15603521 AAAAAACTAA
*
15603531 TAGTTGGTTGAACAAAAGAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAAGAGAACTAAAGGCATAATTGAGTGACTATTTTAG
*
15603582 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAAGAGAACTAAAGGCATAATTGAGTGACTATTTTAG
15603633 TA
1 TA
15603635 ATTTACCCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (51 bp):
TAGTTGATTGAACAAAAGAGAACTAAAGGCATAATTGAGTGACTATTTTAG
Found at i:15607672 original size:24 final size:24
Alignment explanation
Indices: 15607644--15607720 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
15607634 ACAACATTAA
15607644 AAATTGGAACAAACTTTGTAATAT
1 AAATTGGAACAAACTTTGTAATAT
* *
15607668 AAATT--AA-ATACATTAG-AATATT
1 AAATTGGAACAAAC-TTTGTAATA-T
15607690 AAAACTTGGAACAAACTTTGTAATAT
1 -AAA-TTGGAACAAACTTTGTAATAT
15607716 AAATT
1 AAATT
15607721 TTGTTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
21 7 0.17
22 6 0.15
23 3 0.07
24 9 0.22
25 3 0.07
26 6 0.15
27 7 0.17
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (24 bp):
AAATTGGAACAAACTTTGTAATAT
Found at i:15607693 original size:48 final size:48
Alignment explanation
Indices: 15607629--15607720 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
15607619 ATTAATTGCA
15607629 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
* * *
15607677 ACATTAGAATATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
15607721 TTGTTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (48 bp):
ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:15607734 original size:62 final size:62
Alignment explanation
Indices: 15607658--15607782 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
15607648 TGGAACAAAC
* *
15607658 TTTGTAATATAAATTAAATACATTAGAATATTAAAACTTGGAACAA-ACTTTGTAATATAAAT
1 TTTGTAATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAGA-TTTGTAATATAAAT
* *
15607720 TTTGTTATATAAATTAAATACATTAAAACATTAAAACTTGGAATAAGATTTGTAATATAAAT
1 TTTGTAATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAGATTTGTAATATAAAT
15607782 T
1 T
15607783 AGGTACATAG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 57 0.98
63 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (62 bp):
TTTGTAATATAAATTAAATACATTAAAACATTAAAACTTGGAACAAGATTTGTAATATAAAT
Found at i:15610796 original size:31 final size:29
Alignment explanation
Indices: 15610754--15610812 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
15610744 TTCTTTACAT
* * *
15610754 TTAATTTTTATATAATTCTTTTAGATTTG
1 TTAATTTTTATAAAATTCATTTAAATTTG
15610783 TTAATTTAATTATAAAATTCATTTAAATTT
1 TTAATTT--TTATAAAATTCATTTAAATTT
15610813 TGCCATATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTAATTTTTATAAAATTCATTTAAATTTG
Found at i:15611498 original size:52 final size:52
Alignment explanation
Indices: 15611441--15611541 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
15611431 CGACTTGACG
* *
15611441 GGATCAAAAAAGTTCTTTTTTCGATCAAAATCAATGTTTTTAGAACTAGGCA
1 GGATCAAAAAAGTTCTTTTATCGATCAAAATCAATGTTTTCAGAACTAGGCA
* *
15611493 GGATCAAAAAAGTTCTTTTATCGTTCAAAATCAGTGTTTTCAGAACTAG
1 GGATCAAAAAAGTTCTTTTATCGATCAAAATCAATGTTTTCAGAACTAG
15611542 ACTGGATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (52 bp):
GGATCAAAAAAGTTCTTTTATCGATCAAAATCAATGTTTTCAGAACTAGGCA
Found at i:15629667 original size:2 final size:2
Alignment explanation
Indices: 15629660--15629699 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15629650 GGACCCATGC
15629660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15629700 CTGTGGGCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15631244 original size:24 final size:25
Alignment explanation
Indices: 15631217--15631306 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
15631207 GTACATGTAT
* *
15631217 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCATACGAGCTGAATAACGGAAA
* *
15631241 GCTCTTTCGAGCTGAATAACGGAAA
1 GCTCATACGAGCTGAATAACGGAAA
** * *
15631266 GCTCATGTGAGCTAAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGAAA
* *
15631291 GCTCATAAGAGTTGAA
1 GCTCATACGAGCTGAA
15631307 ATAGGTAACC
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
24 13 0.25
25 39 0.75
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGAAA
Found at i:15635888 original size:14 final size:14
Alignment explanation
Indices: 15635871--15635898 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15635861 TTATGTTCTT
15635871 AAAATGTGTTAGTG
1 AAAATGTGTTAGTG
15635885 AAAATGTGTTAGTG
1 AAAATGTGTTAGTG
15635899 TTTATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
AAAATGTGTTAGTG
Found at i:15639450 original size:5 final size:5
Alignment explanation
Indices: 15639440--15639466 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15639430 ATTTCTTGGG
15639440 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
15639467 ACCAAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:15641308 original size:8 final size:8
Alignment explanation
Indices: 15641297--15641335 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
15641287 AGCTACAATA
15641297 AAACTAAC
1 AAACTAAC
15641305 AAACTAAC
1 AAACTAAC
15641313 AAACT-AC
1 AAACTAAC
*
15641320 CAACTAAC
1 AAACTAAC
15641328 ACAACTAA
1 A-AACTAA
15641336 GAACTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 15 0.56
9 6 0.22
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (8 bp):
AAACTAAC
Found at i:15641318 original size:16 final size:16
Alignment explanation
Indices: 15641297--15641335 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
15641287 AGCTACAATA
15641297 AAACTAACAAACTAAC
1 AAACTAACAAACTAAC
*
15641313 AAACT-ACCAACTAAC
1 AAACTAACAAACTAAC
15641328 ACAACTAA
1 A-AACTAA
15641336 GAACTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 10 0.50
16 9 0.45
17 1 0.05
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.13
Consensus pattern (16 bp):
AAACTAACAAACTAAC
Found at i:15641340 original size:16 final size:15
Alignment explanation
Indices: 15641297--15641341 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
15641287 AGCTACAATA
15641297 AAACTAACAAACTAAC
1 AAACTAAC-AACTAAC
*
15641313 AAACTACCAACTAAC
1 AAACTAACAACTAAC
*
15641328 ACAACTAAGAACTA
1 A-AACTAACAACTA
15641342 GAAAAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (15 bp):
AAACTAACAACTAAC
Found at i:15649481 original size:13 final size:15
Alignment explanation
Indices: 15649457--15649491 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15649447 GACACCAGAT
15649457 TATTTTTAA-ATAAG
1 TATTTTTAATATAAG
15649471 TATTTTTAATATAAG
1 TATTTTTAATATAAG
15649486 TATTTT
1 TATTTT
15649492 ATTAGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (15 bp):
TATTTTTAATATAAG
Found at i:15658502 original size:11 final size:11
Alignment explanation
Indices: 15658488--15658520 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15658478 AATGTTTATG
15658488 TATTGTTTGTT
1 TATTGTTTGTT
15658499 TATTGTTTGTT
1 TATTGTTTGTT
*
15658510 T-TTGTGTGTT
1 TATTGTTTGTT
15658520 T
1 T
15658521 TAATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.06, C:0.00, G:0.21, T:0.73
Consensus pattern (11 bp):
TATTGTTTGTT
Found at i:15663041 original size:24 final size:24
Alignment explanation
Indices: 15662995--15663046 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
15662985 TCTCTTTTTG
15662995 AAAAAAATAATGACTAAATTTAAGT
1 AAAAAAATAATGACTAAATTTAA-T
15663020 AAAAAAATAA-GAACTAAA-TTAAT
1 AAAAAAATAATG-ACTAAATTTAAT
15663043 AAAA
1 AAAA
15663047 TAATTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 16 0.62
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (24 bp):
AAAAAAATAATGACTAAATTTAAT
Found at i:15665786 original size:14 final size:14
Alignment explanation
Indices: 15665744--15665787 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
15665734 TCCATCATTT
15665744 AAAATATTACTAAA
1 AAAATATTACTAAA
* *
15665758 AAGAT-TTGACAAAA
1 AAAATATT-ACTAAA
15665772 AAAATATTACTAAA
1 AAAATATTACTAAA
15665786 AA
1 AA
15665788 GAATTTTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (14 bp):
AAAATATTACTAAA
Found at i:15668166 original size:23 final size:23
Alignment explanation
Indices: 15668119--15668166 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
15668109 ATTATTTACT
* **
15668119 TATTTATTCAATCAGTTTTTTAA
1 TATTTATTCAATAAGTTTTAAAA
*
15668142 TATTTATTTAATAAGTTTTAAAA
1 TATTTATTCAATAAGTTTTAAAA
15668165 TA
1 TA
15668167 ATTCAAGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTTATTCAATAAGTTTTAAAA
Found at i:15668920 original size:23 final size:23
Alignment explanation
Indices: 15668894--15668940 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
15668884 AACTTAAACA
*
15668894 CCAAAATGTTATGTTCTTGCTTT
1 CCAAAATATTATGTTCTTGCTTT
15668917 CCAAAATATTATGTTCTTGCTTT
1 CCAAAATATTATGTTCTTGCTTT
15668940 C
1 C
15668941 TTCGTAGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (23 bp):
CCAAAATATTATGTTCTTGCTTT
Found at i:15674655 original size:43 final size:43
Alignment explanation
Indices: 15674594--15674742 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
15674584 ATAGGAGCTT
15674594 CATTGATTTGGCTTCAGGCTATTAGCACTTCAGGTGTGAGTTA
1 CATTGATTTGGCTTCAGGCTATTAGCACTTCAGGTGTGAGTTA
15674637 CATTGATTTGGCTTCAGGCTATTAGCACTTCAGGTGTGAGTTA
1 CATTGATTTGGCTTCAGGCTATTAGCACTTCAGGTGTGAGTTA
* * * * *
15674680 CATTGATTTGGCTTTGGGCCATGATATTAGCATTTCGGGTGCGAGTTA
1 CATTGATTTGGC-TT----CAGGCTATTAGCACTTCAGGTGTGAGTTA
15674728 CATTGATTTGGCTTC
1 CATTGATTTGGCTTC
15674743 GGGAAATGAT
Statistics
Matches: 96, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
43 56 0.58
44 2 0.02
47 2 0.02
48 36 0.38
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.38
Consensus pattern (43 bp):
CATTGATTTGGCTTCAGGCTATTAGCACTTCAGGTGTGAGTTA
Found at i:15674727 original size:48 final size:47
Alignment explanation
Indices: 15674613--15674760 Score: 178
Period size: 48 Copynumber: 3.2 Consensus size: 47
15674603 GGCTTCAGGC
* *
15674613 TATTAGCACTTCAGGTGTGAGTTACATTGATTTGGC-TT---CAGGC
1 TATTAGCACTTCAGGTGTGAGTTACATTGATTTGGCTTTGGGCATGA
15674656 TATTAGCACTTCAGGTGTGAGTTACATTGATTTGGCTTTGGGCCATGA
1 TATTAGCACTTCAGGTGTGAGTTACATTGATTTGGCTTTGGG-CATGA
* * * * *
15674704 TATTAGCATTTCGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
1 TATTAGCACTTCAGGTGTGAGTTACATTGATTTGGCTTTGGG-CATGA
*
15674752 TATTGGCAC
1 TATTAGCAC
15674761 CTAGGGTGCG
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
43 36 0.40
44 2 0.02
48 52 0.58
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (47 bp):
TATTAGCACTTCAGGTGTGAGTTACATTGATTTGGCTTTGGGCATGA
Found at i:15674768 original size:48 final size:48
Alignment explanation
Indices: 15674656--15674772 Score: 137
Period size: 48 Copynumber: 2.4 Consensus size: 48
15674646 GGCTTCAGGC
* * * **
15674656 TATTAGCACTTCA-GGTGTGAGTTACATTGATTTGGCTTTGGGCCATGA
1 TATTAGCACCT-AGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
** *
15674704 TATTAGCATTTCGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
1 TATTAGCACCTAGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
*
15674752 TATTGGCACCTAGGGTGCGAG
1 TATTAGCACCTAGGGTGCGAG
15674773 ACTTCCGAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (48 bp):
TATTAGCACCTAGGGTGCGAGTTACATTGATTTGGCTTCGGGAAATGA
Found at i:15679846 original size:19 final size:17
Alignment explanation
Indices: 15679791--15679848 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
15679781 ATTTATTTTA
15679791 TTTTTTAATTTATAAAT
1 TTTTTTAATTTATAAAT
* * *
15679808 TTTTTTAAAAATAATCAAT
1 TTTTTT--AATTTATAAAT
15679827 TTATTTTAATTTACTAAAT
1 TT-TTTTAATTTA-TAAAT
15679846 TTT
1 TTT
15679849 AATTCTCGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
17 6 0.19
18 5 0.16
19 16 0.52
20 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTAATTTATAAAT
Found at i:15681833 original size:21 final size:21
Alignment explanation
Indices: 15681808--15681878 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
15681798 TAAAACCCAG
15681808 AACTCTAAATTATTTTAACAA
1 AACTCTAAATTATTTTAACAA
* * * *
15681829 AACTCTAAATCATATAAACCTA
1 AACTCTAAATTATTTTAA-CAA
15681851 AAC-CTAAATTATTTTAACAA
1 AACTCTAAATTATTTTAACAA
*
15681871 AACCCTAA
1 AACTCTAA
15681879 CCCTAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 5 0.12
21 30 0.75
22 5 0.12
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTCTAAATTATTTTAACAA
Found at i:15681895 original size:42 final size:42
Alignment explanation
Indices: 15681812--15681896 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
15681802 ACCCAGAACT
* * *
15681812 CTAAATTATTTTAACAAAACTCTAAATCATATAAACCTAAAC
1 CTAAATTATTTTAACAAAACCCTAAACCATAAAAACCTAAAC
* *
15681854 CTAAATTATTTTAACAAAACCCT-AACCCTAAAAATCTTAAAC
1 CTAAATTATTTTAACAAAACCCTAAACCATAAAAA-CCTAAAC
15681896 C
1 C
15681897 AAAAAATCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 8 0.22
42 29 0.78
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.29
Consensus pattern (42 bp):
CTAAATTATTTTAACAAAACCCTAAACCATAAAAACCTAAAC
Found at i:15682280 original size:30 final size:28
Alignment explanation
Indices: 15682228--15682299 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
15682218 AATTATTAAA
*
15682228 ATATTTTATATATTTAAAATAAATTATATTAC
1 ATATTTTA-ATAATTAAAATAAA--AT-TTAC
*
15682260 AT-TTTTAATAATTAATATAAAATTTAC
1 ATATTTTAATAATTAAAATAAAATTTAC
15682287 ATATTTTAA-AATT
1 ATATTTTAATAATT
15682300 TAAACTCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 10 0.27
28 8 0.22
30 12 0.32
31 5 0.14
32 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATTTTAATAATTAAAATAAAATTTAC
Found at i:15683327 original size:27 final size:27
Alignment explanation
Indices: 15683289--15683342 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15683279 ATTTTTGACA
15683289 ATCACATCCTGTATTTTCATCAAAAGT
1 ATCACATCCTGTATTTTCATCAAAAGT
15683316 ATCACATCCTGTATTTTCATCAAAAGT
1 ATCACATCCTGTATTTTCATCAAAAGT
15683343 TAGATAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (27 bp):
ATCACATCCTGTATTTTCATCAAAAGT
Found at i:15683451 original size:32 final size:32
Alignment explanation
Indices: 15683410--15683474 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
15683400 ATCTCGCTAG
15683410 TCTTCCAATTCGATTACGATCAATTGTGAATT
1 TCTTCCAATTCGATTACGATCAATTGTGAATT
*
15683442 TCTTTCAATTCGATTACGATCAATTGTGAATT
1 TCTTCCAATTCGATTACGATCAATTGTGAATT
15683474 T
1 T
15683475 TGTCAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (32 bp):
TCTTCCAATTCGATTACGATCAATTGTGAATT
Found at i:15683466 original size:15 final size:15
Alignment explanation
Indices: 15683415--15683466 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15683405 GCTAGTCTTC
15683415 CAATTCGATTACGAT
1 CAATTCGATTACGAT
* * **
15683430 CAATTGTGAATTTCTTT
1 CAATT-CG-ATTACGAT
15683447 CAATTCGATTACGAT
1 CAATTCGATTACGAT
15683462 CAATT
1 CAATT
15683467 GTGAATTTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 15 0.56
16 2 0.07
17 10 0.37
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (15 bp):
CAATTCGATTACGAT
Found at i:15684470 original size:20 final size:18
Alignment explanation
Indices: 15684423--15684513 Score: 58
Period size: 17 Copynumber: 5.3 Consensus size: 18
15684413 ATAGATAAAC
15684423 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
15684440 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
15684460 ATTAAATTAATA---AA-
1 ATTAAATTAATATTTAAT
*
15684474 A-TACAATTAAGA--TAAGT
1 ATTA-AATTAATATTTAA-T
15684491 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
15684508 ATTAAA
1 ATTAAA
15684514 CTATTAAAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
13 2 0.03
14 8 0.13
15 4 0.07
16 1 0.02
17 22 0.36
18 6 0.10
19 3 0.05
20 15 0.25
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:15686166 original size:17 final size:19
Alignment explanation
Indices: 15686146--15686186 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
15686136 GGCACATTTC
15686146 CCAATAC-T-CCACATGGT
1 CCAATACTTCCCACATGGT
**
15686163 CCAAGGCTTCCCACATGGT
1 CCAATACTTCCCACATGGT
15686182 CCAAT
1 CCAAT
15686187 CACACGGCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
17 5 0.26
18 1 0.05
19 13 0.68
ACGTcount: A:0.27, C:0.37, G:0.15, T:0.22
Consensus pattern (19 bp):
CCAATACTTCCCACATGGT
Found at i:15686246 original size:28 final size:28
Alignment explanation
Indices: 15686202--15686368 Score: 126
Period size: 28 Copynumber: 6.0 Consensus size: 28
15686192 GGCTGTGTGT
*
15686202 CCCTTG-TTTTCAAATTTTATAGTTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
*
15686229 CCCTTGTTTTTCAGATTTTAAAGTTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
* * * **
15686257 CCTCTT-TTTTTTAGATTTTACAAATTTAC
1 CC-CTTGTTTTTCAGATTTTA-TAGTTTTG
** *
15686286 CCCTAATTTTT-AGATTTTATAATTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
* * * *
15686313 -CCTCTATTTTCCAAATTTTATAGTTTTA
1 CCCT-TGTTTTTCAGATTTTATAGTTTTG
* * *
15686341 CCCCTGTTATTCATATTTTATAGTTTTG
1 CCCTTGTTTTTCAGATTTTATAGTTTTG
15686369 ACCTAGAATT
Statistics
Matches: 112, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.03
27 16 0.14
28 76 0.68
29 17 0.15
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (28 bp):
CCCTTGTTTTTCAGATTTTATAGTTTTG
Found at i:15686341 original size:56 final size:56
Alignment explanation
Indices: 15686208--15686368 Score: 150
Period size: 56 Copynumber: 2.9 Consensus size: 56
15686198 GTGTCCCTTG
* ** *
15686208 TTTTCAAATTTTATAGTTTT-GCCCTTGTTTTTCAGATTTTAAAGTTTTGCCTCTTT
1 TTTTCAAATTTTATAGTTTTACCCCTAATTTTTCAGATTTTAAAGTTTTGCCTC-TA
* * * **
15686264 TTTTTAGATTTTACAAATTTACCCCTAATTTTT-AGATTTTATAA-TTTTGCCTCTA
1 TTTTCAAATTTTATAGTTTTACCCCTAATTTTTCAGATTTTA-AAGTTTTGCCTCTA
* * * *
15686319 TTTTCCAAATTTTATAGTTTTACCCCT-GTTATTCATATTTTATAGTTTTG
1 TTTT-CAAATTTTATAGTTTTACCCCTAATTTTTCAGATTTTAAAGTTTTG
15686369 ACCTAGAATT
Statistics
Matches: 82, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
55 10 0.12
56 61 0.74
57 11 0.13
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.55
Consensus pattern (56 bp):
TTTTCAAATTTTATAGTTTTACCCCTAATTTTTCAGATTTTAAAGTTTTGCCTCTA
Found at i:15687051 original size:85 final size:85
Alignment explanation
Indices: 15686891--15687053 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 85
15686881 CTGCAAACAG
* * * *
15686891 TGTGGTTCGATTATGAACCAAGTGACAATTTGTTTAATCTGCAAATATGTTGTGTACTCACAACA
1 TGTGGTTCAATCATGAACCAAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
** *
15686956 ACTGGTAGTAACTGGAAATA
66 AAAGGCAGTAACTGGAAATA
** * *
15686976 TGTGGTTCAATCATGAACCAAGTGGTAGTTTGTTTAATCTGTAAATATGTTGTGCACCCACAACA
1 TGTGGTTCAATCATGAACCAAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
15687041 AAAGGCAGTAACT
66 AAAGGCAGTAACT
15687054 ACAAATCAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (85 bp):
TGTGGTTCAATCATGAACCAAGTGACAATTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
AAAGGCAGTAACTGGAAATA
Found at i:15687664 original size:24 final size:21
Alignment explanation
Indices: 15687635--15687685 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
15687625 TATTTAGCAT
15687635 GCATGACATTTAACTTAATTTAA
1 GCATGACATTTAA-TTAA-TTAA
**
15687658 GACATGATTTTTAATTAATTAA
1 G-CATGACATTTAATTAATTAA
15687680 GCATGA
1 GCATGA
15687686 AATATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 5 0.20
23 5 0.20
24 10 0.40
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
GCATGACATTTAATTAATTAA
Found at i:15687679 original size:22 final size:23
Alignment explanation
Indices: 15687643--15687685 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
15687633 ATGCATGACA
15687643 TTTAACTTAATTTAAGACATGATT
1 TTTAACTTAATTTAAG-CATGATT
15687667 TTTAA-TTAA-TTAAGCATGA
1 TTTAACTTAATTTAAGCATGA
15687686 AATATAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 4 0.21
24 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAACTTAATTTAAGCATGATT
Found at i:15687737 original size:21 final size:19
Alignment explanation
Indices: 15687713--15687761 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 19
15687703 TTAACTCGCT
15687713 ATTTTTCTGAAAATAAACTAA
1 ATTTTTCT-AAAATAAA-TAA
15687734 ATTTTCTTCTAAAATAAATAA
1 A-TTT-TTCTAAAATAAATAA
15687755 ATATTTT
1 AT-TTTT
15687762 AAATTGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 7 0.28
22 11 0.44
23 4 0.16
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTTCTAAAATAAATAA
Found at i:15691518 original size:15 final size:15
Alignment explanation
Indices: 15691498--15691554 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
15691488 ATTCAATATT
15691498 AATATTTTAATAATA
1 AATATTTTAATAATA
*
15691513 AATATTTATTACAATCATA
1 AATA-TT-TT--AATAATA
**
15691532 AATATACTAATAATA
1 AATATTTTAATAATA
15691547 AATATTTT
1 AATATTTT
15691555 GTAATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 3 0.09
18 1 0.03
19 10 0.31
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:15693604 original size:21 final size:22
Alignment explanation
Indices: 15693578--15693619 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15693568 ATAGTCAAAT
*
15693578 ATTAAGGTTTTTG-TTTTTTAC
1 ATTAAGGTTTTCGATTTTTTAC
15693599 ATTAAGGTTTTCGATTTTTTA
1 ATTAAGGTTTTCGATTTTTTA
15693620 TTGTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (22 bp):
ATTAAGGTTTTCGATTTTTTAC
Found at i:15694631 original size:9 final size:9
Alignment explanation
Indices: 15694615--15694643 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15694605 GGTAGCAGGA
15694615 AAAG-AAAG
1 AAAGAAAAG
15694623 AAAGAAAAG
1 AAAGAAAAG
15694632 AAAGAAAAG
1 AAAGAAAAG
15694641 AAA
1 AAA
15694644 AAGGAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:15696797 original size:10 final size:10
Alignment explanation
Indices: 15696766--15696798 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15696756 ATTTAAGAAA
15696766 AATAATATAT
1 AATAATATAT
15696776 AATAAGTA-AT
1 AATAA-TATAT
15696786 AATAATATAT
1 AATAATATAT
15696796 AAT
1 AAT
15696799 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:15696797 original size:17 final size:18
Alignment explanation
Indices: 15696766--15696809 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
15696756 ATTTAAGAAA
15696766 AATAAT-ATATAATAAGT
1 AATAATAATATAATAAGT
*
15696783 AATAATAATAT-ATAATT
1 AATAATAATATAATAAGT
*
15696800 AAAAATAATA
1 AATAATAATA
15696810 CTTATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATAATAAGT
Found at i:15696806 original size:20 final size:21
Alignment explanation
Indices: 15696724--15696809 Score: 78
Period size: 20 Copynumber: 4.3 Consensus size: 21
15696714 ATATGAAAAT
15696724 ATAATAATATATAA--AAGAGA
1 ATAATAATATATAATTAAGA-A
*
15696744 TGTAA-AATA-ATAATTTAAGAA
1 -ATAATAATATATAA-TTAAGAA
*
15696765 A-AATAATATATAA-TAAGTA
1 ATAATAATATATAATTAAGAA
15696784 ATAATAATATATAATTAA-AA
1 ATAATAATATATAATTAAGAA
15696804 ATAATA
1 ATAATA
15696810 CTTATAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
19 12 0.22
20 27 0.50
21 11 0.20
22 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATAATAATATATAATTAAGAA
Found at i:15696824 original size:37 final size:32
Alignment explanation
Indices: 15696747--15696825 Score: 77
Period size: 37 Copynumber: 2.2 Consensus size: 32
15696737 AAAGAGATGT
*
15696747 AAAATAATAATTTAAGAAAAATAATATATAAT
1 AAAATAATAATTTAAGAAAAATAATATATAAC
*
15696779 AAGTAATAATAATATATAATTAAAAATAATACTTATAAC
1 AA--AATAATAAT-T-TAA-GAAAAATAATA--TATAAC
15696818 AAAATAAT
1 AAAATAAT
15696826 TTTATAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 2 0.05
34 9 0.24
35 1 0.03
36 3 0.08
37 16 0.42
39 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAATAATAATTTAAGAAAAATAATATATAAC
Found at i:15703956 original size:23 final size:26
Alignment explanation
Indices: 15703898--15703959 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
15703888 TACAAGGACT
15703898 TATGACATATTTTAACCTAGTATAAAA
1 TATGA-ATATTTTAACCTAGTATAAAA
* *
15703925 CATGAATATTTTAA-TTA-TAT-AAA
1 TATGAATATTTTAACCTAGTATAAAA
15703948 TATGAATATTTT
1 TATGAATATTTT
15703960 TTTAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 14 0.44
24 3 0.09
25 2 0.06
26 9 0.28
27 4 0.12
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (26 bp):
TATGAATATTTTAACCTAGTATAAAA
Found at i:15707733 original size:16 final size:16
Alignment explanation
Indices: 15707704--15707751 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
15707694 GTTAACTTGT
15707704 TTTATTTTTAAAATATTA
1 TTTA-TTTT-AAATATTA
15707722 TTTATTTTAAATATTA
1 TTTATTTTAAATATTA
*
15707738 TTTATATTAAATAT
1 TTTATTTTAAATAT
15707752 GTTATACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 21 0.72
17 4 0.14
18 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATTTTAAATATTA
Found at i:15708574 original size:2 final size:2
Alignment explanation
Indices: 15708563--15708594 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
15708553 ATTGAGAAAT
15708563 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15708595 AAATTAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15710165 original size:25 final size:25
Alignment explanation
Indices: 15710119--15710207 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
15710109 TTCAGCTTTT
* * * *
15710119 ATGAGCTTCTCGATAGACAGCTCGC
1 ATGAGCTTCCCGTTATATAGCTCGC
* *
15710144 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCGC
15710169 ATGAGCTTCCCGTTATATAGCTCG-
1 ATGAGCTTCCCGTTATATAGCTCGC
*
15710193 GTAGAGCTTCCCGTT
1 AT-GAGCTTCCCGTT
15710208 TACATGCTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCGC
Found at i:15710224 original size:25 final size:25
Alignment explanation
Indices: 15710144--15710224 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
15710134 GACAGCTCGC
* *
15710144 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCAT
*
15710169 ATGAGCTTCCCGTTATATAGCTCGGT
1 ATGAGCTTCCCGTTATATAGCTC-AT
*
15710195 A-GAGCTTCCCGTT-TACATGCTCAT
1 ATGAGCTTCCCGTTATATA-GCTCAT
15710219 ATGAGC
1 ATGAGC
15710225 ATACATGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 42 0.88
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCAT
Found at i:15710721 original size:33 final size:33
Alignment explanation
Indices: 15710679--15710745 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
15710669 AGCTAGTCGG
15710679 AGCTGAATCACACTATCCATC-GACTCCTTTGGT
1 AGCTGAATCACACTATCCATCTGA-TCCTTTGGT
15710712 AGCTGAATCACACTATCCATCTGATCCTTTGGT
1 AGCTGAATCACACTATCCATCTGATCCTTTGGT
15710745 A
1 A
15710746 TTTTCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (33 bp):
AGCTGAATCACACTATCCATCTGATCCTTTGGT
Found at i:15711070 original size:25 final size:25
Alignment explanation
Indices: 15711024--15711112 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
15711014 TTCAGCTTTT
* * * *
15711024 ATGAGCTTCTCGATAGACAGCTCGC
1 ATGAGCTTCCCGTTATATAGCTCGC
* *
15711049 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCGC
15711074 ATGAGCTTCCCGTTATATAGCTCG-
1 ATGAGCTTCCCGTTATATAGCTCGC
*
15711098 GTAGAGCTTCCCGTT
1 AT-GAGCTTCCCGTT
15711113 TACATGCTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCGC
Found at i:15711129 original size:25 final size:25
Alignment explanation
Indices: 15711049--15711129 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
15711039 GACAGCTCGC
* *
15711049 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCAT
*
15711074 ATGAGCTTCCCGTTATATAGCTCGGT
1 ATGAGCTTCCCGTTATATAGCTC-AT
*
15711100 A-GAGCTTCCCGTT-TACATGCTCAT
1 ATGAGCTTCCCGTTATATA-GCTCAT
15711124 ATGAGC
1 ATGAGC
15711130 ATACATGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 42 0.88
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCAT
Found at i:15711626 original size:33 final size:33
Alignment explanation
Indices: 15711584--15711650 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
15711574 AGCTAGTCGG
15711584 AGCTGAATCACACTATCCATC-GACTCCTTTGGT
1 AGCTGAATCACACTATCCATCTGA-TCCTTTGGT
15711617 AGCTGAATCACACTATCCATCTGATCCTTTGGT
1 AGCTGAATCACACTATCCATCTGATCCTTTGGT
15711650 A
1 A
15711651 TTTTCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (33 bp):
AGCTGAATCACACTATCCATCTGATCCTTTGGT
Found at i:15711976 original size:25 final size:25
Alignment explanation
Indices: 15711930--15712018 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
15711920 TTCAGCTTTT
* * * *
15711930 ATGAGCTTCTCGATAGACAGCTCGC
1 ATGAGCTTCCCGTTATATAGCTCGC
* *
15711955 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCGC
15711980 ATGAGCTTCCCGTTATATAGCTCG-
1 ATGAGCTTCCCGTTATATAGCTCGC
*
15712004 GTAGAGCTTCCCGTT
1 AT-GAGCTTCCCGTT
15712019 TACATGCTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCGC
Found at i:15712035 original size:25 final size:25
Alignment explanation
Indices: 15711955--15712035 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
15711945 GACAGCTCGC
* *
15711955 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCAT
*
15711980 ATGAGCTTCCCGTTATATAGCTCGGT
1 ATGAGCTTCCCGTTATATAGCTC-AT
*
15712006 A-GAGCTTCCCGTT-TACATGCTCAT
1 ATGAGCTTCCCGTTATATA-GCTCAT
15712030 ATGAGC
1 ATGAGC
15712036 ATACATGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 42 0.88
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCAT
Found at i:15712532 original size:33 final size:33
Alignment explanation
Indices: 15712490--15712556 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
15712480 AGCTAGTCGG
15712490 AGCTGAATCACACTATCCATC-GACTCCTTTGGT
1 AGCTGAATCACACTATCCATCTGA-TCCTTTGGT
15712523 AGCTGAATCACACTATCCATCTGATCCTTTGGT
1 AGCTGAATCACACTATCCATCTGATCCTTTGGT
15712556 A
1 A
15712557 TTTTCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (33 bp):
AGCTGAATCACACTATCCATCTGATCCTTTGGT
Found at i:15712575 original size:906 final size:906
Alignment explanation
Indices: 15710108--15713735 Score: 7249
Period size: 906 Copynumber: 4.0 Consensus size: 906
15710098 AGCTTCTCGA
15710108 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
1 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
15710173 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
66 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
15710238 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
131 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
15710303 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
196 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
15710368 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
261 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
15710433 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
326 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
15710498 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
391 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
15710563 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
456 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
15710628 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
521 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
15710693 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
586 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
15710758 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
651 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
15710823 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
716 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
15710888 -TTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
781 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
15710952 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
846 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
15711013 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
1 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
15711078 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
66 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
15711143 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
131 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
15711208 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
196 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
15711273 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
261 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
15711338 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
326 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
15711403 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
391 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
15711468 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
456 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
15711533 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
521 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
15711598 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
586 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
15711663 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
651 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
15711728 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
716 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
15711793 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
781 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
15711858 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
846 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
15711919 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
1 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
15711984 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
66 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
15712049 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
131 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
15712114 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
196 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
15712179 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
261 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
15712244 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
326 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
15712309 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
391 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
15712374 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
456 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
15712439 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
521 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
15712504 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
586 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
15712569 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
651 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
15712634 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
716 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
15712699 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
781 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
15712764 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
846 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
15712825 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
1 TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
15712890 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
66 GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
15712955 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
131 AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
15713020 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
196 AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
15713085 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
261 CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
15713150 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
326 TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
15713215 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
391 TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
15713280 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
456 TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
15713345 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
521 TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
15713410 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
586 ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
15713475 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
651 TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
15713540 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
716 AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
15713605 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
781 TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
15713670 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
846 GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
15713731 TTTCA
1 TTTCA
15713736 AATTGTCATT
Statistics
Matches: 2722, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
905 780 0.29
906 1942 0.71
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (906 bp):
TTTCAGCTTTTATGAGCTTCTCGATAGACAGCTCGCATGAGCTTCCCGTTATTTAGCTCACATGA
GCTTCCCGTTATATAGCTCGGTAGAGCTTCCCGTTTACATGCTCATATGAGCATACATGTACATG
AATTGACAGATTACAGTTGTGTACACTTCGTGTGTACTACCCATGTATCCAATGATATTTTAAAC
AGTTCAACAGGCAATGCTCTATTATGAGACAAAATGAGTTCGGTACAAACTATTACAAGTATATA
CATGGAAATGATATTACTTGATATATTGAAACATGATTCCATTGATACATATATGTCGAACTTGC
TTAATGACCGTGTTCATCTATGATTATGAGCTATTATATGTGTTTACATGGCTAACATGTTGAGG
TTATGTGTTTAGGCTTTTGGCCAAAGTAGTTTGAATATGTCTTGTATGCTTACCTTAAATGTGAT
TAAATGGTAAGTTAAATTCTATGTTATACGAACTTACGAAGTTTAAAAGCTTACCCCATGTTATT
TTTCATGTTTTATAGTAATTCGGAAGCTCATTGGGGTTGGAAGCTAGTCGGAGCTGAATCACACT
ATCCATCGACTCCTTTGGTAGCTGAATCACACTATCCATCTGATCCTTTGGTATTTTCAATAAAT
TAATTCTGATTATAATGGCATGTATAGGTTATTTTAGTCAATGTTGGTATATAAATGTTTTGTTG
AAACTAGCCATTTGAATGGTTTGTGTTTGGTATATTTTGGTGTGTATATAAGTAGCCTTATCATG
TTTGGAATGTGTTTGGAATGGTTGAATGATGGAAAATTATAGGTATATTGAGAATTGGTTGATTT
GGTATATTATGCATATATGTATTTTGTTATCTAGGTAAATTTTGAAATTTGATTGACATGT
Found at i:15712882 original size:25 final size:25
Alignment explanation
Indices: 15712836--15712924 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
15712826 TTCAGCTTTT
* * * *
15712836 ATGAGCTTCTCGATAGACAGCTCGC
1 ATGAGCTTCCCGTTATATAGCTCGC
* *
15712861 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCGC
15712886 ATGAGCTTCCCGTTATATAGCTCG-
1 ATGAGCTTCCCGTTATATAGCTCGC
*
15712910 GTAGAGCTTCCCGTT
1 AT-GAGCTTCCCGTT
15712925 TACATGCTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 53 0.98
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCGC
Found at i:15712941 original size:25 final size:25
Alignment explanation
Indices: 15712861--15712941 Score: 94
Period size: 25 Copynumber: 3.2 Consensus size: 25
15712851 GACAGCTCGC
* *
15712861 ATGAGCTTCCCGTTATTTAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCAT
*
15712886 ATGAGCTTCCCGTTATATAGCTCGGT
1 ATGAGCTTCCCGTTATATAGCTC-AT
*
15712912 A-GAGCTTCCCGTT-TACATGCTCAT
1 ATGAGCTTCCCGTTATATA-GCTCAT
15712936 ATGAGC
1 ATGAGC
15712942 ATACATGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
24 5 0.10
25 42 0.88
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCAT
Found at i:15713438 original size:33 final size:33
Alignment explanation
Indices: 15713396--15713462 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
15713386 AGCTAGTCGG
15713396 AGCTGAATCACACTATCCATC-GACTCCTTTGGT
1 AGCTGAATCACACTATCCATCTGA-TCCTTTGGT
15713429 AGCTGAATCACACTATCCATCTGATCCTTTGGT
1 AGCTGAATCACACTATCCATCTGATCCTTTGGT
15713462 A
1 A
15713463 TTTTCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (33 bp):
AGCTGAATCACACTATCCATCTGATCCTTTGGT
Found at i:15723089 original size:13 final size:13
Alignment explanation
Indices: 15723073--15723099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15723063 ACATTATGCA
15723073 AACAAATGGTTTT
1 AACAAATGGTTTT
15723086 AACAAATGGTTTT
1 AACAAATGGTTTT
15723099 A
1 A
15723100 TTTAAACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:15723782 original size:16 final size:16
Alignment explanation
Indices: 15723753--15723800 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15723743 GTTAACTTGT
15723753 TTTATTTTTAAAATATTA
1 TTTA-TTTT-AAATATTA
15723771 TTTATTTTAAATATTA
1 TTTATTTTAAATATTA
* *
15723787 CTTATATTAAATAT
1 TTTATTTTAAATAT
15723801 GTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 20 0.71
17 4 0.14
18 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATTTTAAATATTA
Found at i:15723794 original size:25 final size:25
Alignment explanation
Indices: 15723765--15723828 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
15723755 TATTTTTAAA
15723765 ATATTATTTATTTTAAATAT-TACTT
1 ATATTATTTATTTTAAATATATA-TT
** * *
15723790 ATATTAAATATGTTATATATATATT
1 ATATTATTTATTTTAAATATATATT
*
15723815 ATATCATTTATTTT
1 ATATTATTTATTTT
15723829 TATATAAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
25 28 0.93
26 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTATTTTAAATATATATT
Found at i:15723924 original size:23 final size:25
Alignment explanation
Indices: 15723898--15723944 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
15723888 TATAAAAAAA
*
15723898 TGAGTTTTTA-ATA-ATTTCTTAAT
1 TGAGTTATTATATATATTTCTTAAT
*
15723921 TGAGTTATTATCTATATTTCTTAA
1 TGAGTTATTATATATATTTCTTAA
15723945 AAAACGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 2 0.10
25 9 0.45
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (25 bp):
TGAGTTATTATATATATTTCTTAAT
Found at i:15724179 original size:12 final size:12
Alignment explanation
Indices: 15724164--15724203 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
15724154 TTTCTTCATA
15724164 TTTTTTAAATAC
1 TTTTTTAAATAC
*
15724176 TTTTTTAAATAA
1 TTTTTTAAATAC
* *
15724188 TTTTTAAAATTC
1 TTTTTTAAATAC
15724200 TTTT
1 TTTT
15724204 AAATATATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTTAAATAC
Found at i:15729259 original size:29 final size:30
Alignment explanation
Indices: 15729209--15729270 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
15729199 AACACAAGTT
* *
15729209 TAAAAGCTAGAAAAAATT-AAAAGTTTAAA
1 TAAAAACTAGAAAAAATTAAAAAATTTAAA
*
15729238 TAAAAACTA-AAATAATTAAAAAAATTTAAA
1 TAAAAACTAGAAAAAATT-AAAAAATTTAAA
15729268 TAA
1 TAA
15729271 CTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 8 0.29
30 13 0.46
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (30 bp):
TAAAAACTAGAAAAAATTAAAAAATTTAAA
Found at i:15729280 original size:18 final size:18
Alignment explanation
Indices: 15729247--15729281 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15729237 ATAAAAACTA
*
15729247 AAATAATTAAAAAAATTT
1 AAATAACTAAAAAAATTT
*
15729265 AAATAACTAAATAAATT
1 AAATAACTAAAAAAATT
15729282 ATTGTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACTAAAAAAATTT
Found at i:15729725 original size:24 final size:24
Alignment explanation
Indices: 15729696--15729747 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
15729686 TTAAATTATT
* *
15729696 ATATTTAATAATTATTATGTTAAA
1 ATATTTAATAATAATCATGTTAAA
15729720 ATATTTAATAATAATCATGTTAAA
1 ATATTTAATAATAATCATGTTAAA
15729744 ATAT
1 ATAT
15729748 GGTTAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATTTAATAATAATCATGTTAAA
Found at i:15732907 original size:3 final size:3
Alignment explanation
Indices: 15732899--15732935 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
15732889 AATGGTGATG
*
15732899 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CGT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
15732936 TTATAGGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.03, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:15738847 original size:1 final size:1
Alignment explanation
Indices: 15738831--15738887 Score: 96
Period size: 1 Copynumber: 57.0 Consensus size: 1
15738821 TCTCTCTCTC
* *
15738831 TTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15738888 CTGAAATGGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:15739356 original size:26 final size:26
Alignment explanation
Indices: 15739305--15739376 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 26
15739295 TTTTAATCCT
**
15739305 TTTTTATTT-TAAATATTTTTTA-TA
1 TTTTTATTTATAAATATTAGTTATTA
15739329 TTATTTATTTTTATAAATATTAGTTATTA
1 TT-TTTA--TTTATAAATATTAGTTATTA
*
15739358 TTTTTATTTATATATATTA
1 TTTTTATTTATAAATATTA
15739377 TCCATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.05
25 4 0.10
26 12 0.30
27 3 0.08
28 15 0.38
29 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
TTTTTATTTATAAATATTAGTTATTA
Found at i:15739377 original size:22 final size:22
Alignment explanation
Indices: 15739325--15739377 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
15739315 AAATATTTTT
15739325 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
15739348 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
15739370 TATATTAT
1 TATATTAT
15739378 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:15739383 original size:26 final size:26
Alignment explanation
Indices: 15739328--15739389 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
15739318 TATTTTTTAT
*
15739328 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
15739354 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
15739380 ATTATATTAT
1 ATTAT-TTAT
15739390 ATTATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.10
26 24 0.80
27 2 0.07
28 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:15741102 original size:136 final size:136
Alignment explanation
Indices: 15740851--15741146 Score: 342
Period size: 136 Copynumber: 2.2 Consensus size: 136
15740841 CCAGATTGAA
* * * * * * *
15740851 CTCATGTTTAATGTCTCGGGGGACTTTTTATGATGCCATAGTCAAGCTATGGTCTTAGATAATTG
1 CTCATATTTAATGTCTCGGGGGACTCTTTATAATGCCATAGTCAAGCTATGATCTTACACAACTG
* * ** *
15740916 ACTGCCCATGTTTACTGTCTTGACAGACAACCTATGTTGCCAAGGTCAAGCCAAGGCCTTACACC
66 AATGCCCATGTTTACTATCCCGACAGACAACCTATGTTGCCAAGGCCAAGCCAAGGCCTTACACC
15740981 TAAAAT
131 TAAAAT
* * *
15740987 CTCATATTTAATGTCTTGGTGGACTCTTTATAATGCCATAGTCGAGCTATGATCTTACACAACTG
1 CTCATATTTAATGTCTCGGGGGACTCTTTATAATGCCATAGTCAAGCTATGATCTTACACAACTG
* * * * * * *
15741052 AATGCTCGTGTTTACTATCCCGA-TGAACTACCTATGTTGCCATGGCCAAGCCAGGGTCTTACAC
66 AATGCCCATGTTTACTATCCCGACAG-ACAACCTATGTTGCCAAGGCCAAGCCAAGGCCTTACAC
* *
15741116 TTGAAAT
130 CTAAAAT
* *
15741123 CTCATATTTAATATCTCGGCGGAC
1 CTCATATTTAATGTCTCGGGGGAC
15741147 ATCCCCGTGT
Statistics
Matches: 132, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
135 1 0.01
136 131 0.99
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (136 bp):
CTCATATTTAATGTCTCGGGGGACTCTTTATAATGCCATAGTCAAGCTATGATCTTACACAACTG
AATGCCCATGTTTACTATCCCGACAGACAACCTATGTTGCCAAGGCCAAGCCAAGGCCTTACACC
TAAAAT
Found at i:15742284 original size:15 final size:17
Alignment explanation
Indices: 15742266--15742299 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
15742256 TTTAATTTTT
15742266 TAATTAT-TTTA-AATA
1 TAATTATATTTATAATA
15742281 TAATTATATTTATAATA
1 TAATTATATTTATAATA
15742298 TA
1 TA
15742300 TAAGTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTATATTTATAATA
Found at i:15742337 original size:13 final size:13
Alignment explanation
Indices: 15742321--15742372 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
15742311 AGTTAGTTAA
15742321 ATATATTTATAAT
1 ATATATTTATAAT
15742334 ATATTATTT-TAAAT
1 ATA-TATTTAT-AAT
15742348 ATATATTTATAAT
1 ATATATTTATAAT
15742361 ATAT-TTTA-AAT
1 ATATATTTATAAT
15742372 A
1 A
15742373 ATTTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.11
12 4 0.11
13 16 0.44
14 12 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATATTTATAAT
Found at i:15742372 original size:11 final size:11
Alignment explanation
Indices: 15742317--15742376 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 11
15742307 ATTAAGTTAG
15742317 TTAAATATATT
1 TTAAATATATT
15742328 TATAATATATTATT
1 T-TAA-ATA-TATT
15742342 TTAAATATATAT
1 TTAAATATAT-T
15742354 TTATAATATATT
1 TTA-AATATATT
15742366 TTAAATA-ATT
1 TTAAATATATT
15742376 T
1 T
15742377 AATTAATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.09
11 8 0.18
12 14 0.32
13 13 0.30
14 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAAATATATT
Found at i:15752374 original size:13 final size:13
Alignment explanation
Indices: 15752358--15752383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15752348 GTTTTGTGCT
15752358 GATATTTTTCTTA
1 GATATTTTTCTTA
15752371 GATATTTTTCTTA
1 GATATTTTTCTTA
15752384 TTTGAGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
GATATTTTTCTTA
Found at i:15755375 original size:20 final size:20
Alignment explanation
Indices: 15755338--15755375 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15755328 CAAAATAATA
*
15755338 CTAAATAAATAAATATTTAT
1 CTAAATAAATAAAGATTTAT
15755358 CTAAAT-AATATAAGATTT
1 CTAAATAAATA-AAGATTT
15755376 TTTTTTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATAAATAAAGATTTAT
Done.